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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgattgagtttatttcttttacattggatatttaactgtcaagaagttgttgttattgacttatgtgctaacttgagagttaattaacatgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA

Basic information

species Vitis vinifera
transcript Vv01s0244g00070.t01
intron # 2
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|351031196|gb|FQ445023.1|FQ445023
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351022412|gb|FQ445187.1|FQ445187
EST:     CAGTTCCTATACCCCCAATAGAACCCCCTAATAGGCAAAAAGAGAAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCCAAAGATACTGGAGATCAAC
genomic: CAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAA-Ggtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGC
EST: gi|351046750|gb|FQ454360.1|FQ454360
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|352798824|gb|FQ478459.1|FQ478459
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|352768718|gb|FQ467930.1|FQ467930
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351032600|gb|FQ458965.1|FQ458965
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCCAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCCACCCCAAAGATACCGGAGATCAG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAG
EST: gi|351012981|gb|FQ433708.1|FQ433708
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351024338|gb|FQ423761.1|FQ423761
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351052036|gb|FQ455329.1|FQ455329
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351037721|gb|FQ464162.1|FQ464162
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351030666|gb|FQ438504.1|FQ438504
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACGGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351036830|gb|FQ459352.1|FQ459352
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351031918|gb|FQ460175.1|FQ460175
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|349821835|gb|FQ412990.1|FQ412990
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351037441|gb|FQ460640.1|FQ460640
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351026953|gb|FQ436606.1|FQ436606
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAAGAGGGAAAAAGAGAAAAG                         ATTCTCATCAAATGTTG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTG
EST: gi|351047980|gb|FQ441152.1|FQ441152
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|161717169|gb|FC066567.1|FC066567
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351052469|gb|FQ452502.1|FQ452502
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCANATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
EST: gi|351055097|gb|FQ440436.1|FQ440436
EST:     CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAG                         ATTCTCATCAGATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG
genomic: CCAGTTCCTATACCCCCAATAGAACCTCCTAATAGGCAAAAAGAGAAAAGgtaaacaatt ... tgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgttgttattgacttatgtgctaacttgagagttaattaacatgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA
                                   ttaattaacat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgattgagtttatttcttttacattggatatttaactgtcaagaagttgttgttattgacttatgtgctaacttgagagttaattaacatgactgacagATTCTCATCAAATGTTGGACATTTCAACCCAAAAGATACTGGAGATCAGCGGGAGGCTTCTGCCCTTCGTGATGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - ctgtcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatgtgc